The paper introduces K9HeartCircDB, a database of circRNAs in canine heart tissue under tachypacing-induced HF, providing tools for circRNA exploration and validation.

DOI 10.1186/s12967-026-08866-9

experimental assaydatabase / resource

BioinformaticsBMC BioinformaticsPeer-reviewedJun 2, 2025

SC2Spa: a deep learning based approach to map transcriptome to spatial origins at cellular resolution

Linbu Liao, Esha Madan, António M. Palma…·Kyoung‐Jae Won

SC2Spa maps single-cell RNA-seq data to spatial coordinates using deep learning, improving resolution for low-resolution spatial transcriptomics data and identifying spatially variable genes.

2 citations

scRNA-seqspatial transcriptomics

BioinformaticsMolecular Systems BiologyPeer-reviewedOct 10, 2023

CellNeighborEX: Deciphering Neighbor-Dependent Gene Expression from Spatial Transcriptomics Data

Hyobin Kim, Amit Kumar, Cecilia Lövkvist…·Kyoung‐Jae Won

CellNeighborEX identifies gene expression influenced by neighboring cells in spatial transcriptomics data, revealing new insights into cell-cell interactions in mouse embryos, brain, and liver cancer.

43 citationstop 5%

mousespatial transcriptomics

GenomicsbioRxivPreprintNov 26, 2022

CRISPR correction of GBA mutation in hiPSCs restores normal function to Gaucher macrophages and increases their susceptibility to Mycobacterium tuberculosis

Sivaprakash Ramalingam, Amit Kumar, Stefanie Krug…·Srinivasan Chandrasegaran

This study corrects GBA mutations in hiPSCs to restore macrophage function in Gaucher disease and shows increased susceptibility to Mycobacterium tuberculosis.

1 citation

humanexperimental assay